New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 1637930	7 (0.400)	4 (0.240)	3/294	NT	31.0%	coding (632/1050 nt)	ydfU	Qin prophage; uncharacterized protein
	?	CP009273	= 1638035	11 (0.660)					coding (527/1050 nt)	ydfU	Qin prophage; uncharacterized protein

TTTTCCTGTGGTGATTTTTGTTGCTGGTGGGCGTAAGGCAACGGTGCAAGATTTTTTGTGCGTTGTTTCAATATGCTGGTGGCGGTCAGCTCTCCCGGTACGATGTCGCTTTCGCGGTACACCGAGCAGATTTTTTCCGCTGGTAATCCCAGCGAACGACGCGATACAGCCTCAGGTAGTGCATCCACCACCTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCCTGCGTACCGCTTATTGCGTGACGGATGACGTCAATCACCCATGCTGTCAGATTTTGTTGAGCAAGCAGCTCCAGTGATTCCGATGTCTGGTCACGCAGTTGGTTGTCGCAGTGCCAGCACAACACCATTGCGCCGGTACCATAACGGTGAATGACTGTTTCAGTGTGATGGTAATCGCCATTAGGCCACTGGCAGGATGTAACATG  >  CP009273/1637849‑1638297                                                                                                                                                                                           |                                                                                                                                                                                                                                                                       ttttCCTGTGGTGATTTTTGTTGCTGGTGGGCGTAAGGCAACGGTGCAAGATTTTTTGTGCGTTGTTTCAATATGCTGGTGGCGGTCAGCTCTCCCGCTACGATGTCGCTTTCGCGGTACACCGAGCAGATTTTTTCCGCTGGTAATCCCAGCGAACGACGCGATACAGCCTCAGGTAGTGCATCCACCACCTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCCTGCGTACCGCTTATTGCGTGACGGATGACGTc                                                                                                                                                                                <  1:182670/275‑1 (MQ=255)                                                 aGATTTTTTGTGCGTTGTTTCAATATGCTGGTGGCGGTCNGCTCTCCCGGTACGATGTCGCTTTCGCGGTACACCGAGCAGATTTTTTCCGCTGGTAATCCCAGCGAACGACGCGATACAGCCTCAGGTAGTGCATCCACCACCTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCTTGCGTACCGCTAATTGCGTGACGGATGa                                                                                                                                                                                    <  1:241054/223‑1 (MQ=255)                                                            tcGTTGTATCCAGATGCTGGTGGCGGTCAGCTCTCCCGGTACGATGTCTCTTTCGCGGTACACCGAGCAGATTTTTTCCGCTCGTAATCCCAGCGAACGACGCGATACAGCCTCAGGTAGTGCATCCACCACCTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCCTGCGTACCGCTTATTGCGTGACGGATGACGTCAATCACCCATGCTGTCAGATTTTGTTGAGCAAGCAGCTCCAGTGATTCCGATGTCTGGt                                                                                                                     <  2:75324/274‑1 (MQ=255)                                                            gCGTTGTTTCCATATGCTGGTGGCGGTCAGCTCTCCCGGTACGATGTCGCTTTCGCGGTACACCGAGCAGATTTTTTCCGCTGGTAATCCCAGCGAACGACGCGATACAGCCTCAGGTAGTGCATCCACCACCTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCCTGCGTACCGCTTATTGCGTGAccagacatcg                                                                                                                                                                                 >  1:330417/1‑206 (MQ=255)                                                             cGTTGTTTCAATATGCTGGTGGCGGTCAGCTCTCCCGGTACGATGTCGCTTTCGCGGTACACCGAGCAGATTTTTTCCGCTGGTAATCCCAGCGAACGACGCGATACAGCCTCAGGTAGTGCATCCACCACCTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCCTGCGTACCGCTTATTGCGTGACGGATGACTTCACTCACCCATGCCGTCAGATGTTGTTGAGCAAGCAGCTCAAGTAATTCCGATGTCTGTTc                                                                                                                    >  1:75326/1‑275 (MQ=255)                                                                              cgtgggcgTCAGCTCTCCCGGTCCGATGTCGCTTTCGCGGTACACCGAGCAGATTTTTTCCTCTGGTAATCCCAGCGCACGACGCGATACAGCCTCAGGTAGTGCATCCACCACCTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCCTGCGTACCGCTTATTGCGTGACGGATGACGTCAATCACCCATGCTGTCAGATTTTGTTGAGCAAGCAGCTCCAGTGATTCCGATGTCTGGTCACGCAGTTGGTTGTCGc                                                                                                   <  2:39315/268‑1 (MQ=255)                                                                                                                                       ttCCGCTGGTAATCCCAGCGAACGACGCGATACAGCCTCAGGTAGTGCATCCACCACCTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCCTGCGTACCGCTTATTGCGTGACGGCTGACGTCAATCACCCATGCTGTCCGATTTTGTTGAGCCAGCAGCTCCAGTGATTCCGCTGTCTGGTCACGCAGTTGGTTGTCGCAGTTCCATCCAAACACCCTTGCGCCGGTACCTTACCGGCGAACTACTGttccgtgtt                                          >  2:234711/1‑268 (MQ=255)                                                                                                                                                         cGAACGACGCGATACAGCCTCAGGTAGTGCATCCAccaccagcatattgaaacaacgcacaaaaaatcttgcaccgttgccttacgcccaccagcaacaaaaatcac                                                                                                                                                                                                <  1:6955‑M2/107‑73 (MQ=255)                                                                                                                                                         cGAACGACGCGATACAGCCTCAGGTAGTACATCCAccaccagcatattgaaacaacgcacaaaaaatcttgcaccgt                                                                                                                                                                                                                              <  1:237940‑M2/77‑43 (MQ=255)                                                                                                                                                             cgacgCGATACAGCCTCAGGTAGTGCATCCAccaccagcatattgaaacaacgcacaaaaaatcttgcaccgttgccttacgcccaccagcaacaaaaatcaccaca                                                                                                                                                                                            >  2:6955‑M2/1‑31 (MQ=255)                                                                                                                                                             cgacgCGATACAGCCTCAGGTAGTGCATCCAccaccagcatattgaaacaacgcacaaaaaatcttgcaccgttgcc                                                                                                                                                                                                                          >  2:237933‑M2/1‑31 (MQ=255)                                                                                                                                                                          ccTCAGGTAGTGCATCCACCACCTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCCTGCGTACCGCTTATTGCGTGACGGATGACGTCAATCACCCATGCTGTCAGATTTTGTTGAGCAAGCAGCTCCAGTGATTCCGATGTCTGGTCACGCAGTTGGTTGTCGCAGTGCCAGCACAACACCATTGCGCCGGTACCATAACGGTGAATGACTGTTTCAGTGTGATGGTAATCGCCATTAGGcaa                    >  1:86616/1‑260 (MQ=255)                                                                                                                                                                          ccTCAGGTAGTGCATCCACCACCTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCCTGCGTACCGCTTATTGCGTGACGGATGACGTCAATCACCCATGCTGTCAGATTTTGTTGAGCAAGCAGCTCCAGTGATTCCGATGTCTGGTCACGCAGTTGGTTGTCGCAGTGCCAGCACAACACCATTGCGCCGGTACCATAACGGTGAATGACTGTTTCAGTGTGATGGTAATCGCCATTAGGCCa                    <  2:86614/262‑1 (MQ=255)                                                                                                                                                                               ggTAGTGCATCCACCACCTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCCTGCGTACCGCTTATTGCGTGACNGATGACGTCAATCACCCATGCTGTCAGATTTTGTTGAGCAAGCAGCTCCAGTGATTCCGATGTCTGGTCACGCAGTTGGTTGTCGCAGTGCCAGCACAACACCATTGCGCCGGTACCATAACGGTGAATGACTGTTTCAGTGTGATGGTAATCGCCATGTGGCCACTCGCAGGATGTAACATg  <  1:234718/275‑1 (MQ=255)                                                                                                                                                                                    tGCATCCACCACCTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCCTGCGTACCGCTTATTGCGTGACGGATGACGTCAATCACCCATGCTGTCAGATTTTGTTGAGCAAGCAGCTCCAGTGATTCCGATGTCTGGTCACGCAgt                                                                                                             >  2:74482/1‑163 (MQ=255)                                                                                                                                                                                        tCCACCACCTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCCTGCGTACCGCTTATTGCGTGACGGATGACGTCAATCACCCATGCTGTCAGATTTTGTTGAGCAAGCAGCTCCAGTGATTCCGATGTCTGGTCACGCAgttggt                                                                                                         <  1:74484/163‑1 (MQ=255)                                                                                                                                                                                           accaccTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCCTGCGTACCGCTTATTGCGTGACGGATGACGTCAATCACCCATGCTGTCAGATTTTGTTGAGCAAGCAGCTCCAGTGATTCCGATGTCTGGTCACGCAGTTGGTTGTCGCAGTGCCAGCCCAACACCATTGCGCCGGTACCATAACGGTGAATGACt                                                    >  1:36643/1‑213 (MQ=255)                                                                                                                                                                                           |                                                                                                                                                                                                                                                                       TTTTCCTGTGGTGATTTTTGTTGCTGGTGGGCGTAAGGCAACGGTGCAAGATTTTTTGTGCGTTGTTTCAATATGCTGGTGGCGGTCAGCTCTCCCGGTACGATGTCGCTTTCGCGGTACACCGAGCAGATTTTTTCCGCTGGTAATCCCAGCGAACGACGCGATACAGCCTCAGGTAGTGCATCCACCACCTGATTGCAGACCGCCCACCAGGATAATTCAGCCAAAGATAATTCCCGCTCCTGCGTACCGCTTATTGCGTGACGGATGACGTCAATCACCCATGCTGTCAGATTTTGTTGAGCAAGCAGCTCCAGTGATTCCGATGTCTGGTCACGCAGTTGGTTGTCGCAGTGCCAGCACAACACCATTGCGCCGGTACCATAACGGTGAATGACTGTTTCAGTGTGATGGTAATCGCCATTAGGCCACTGGCAGGATGTAACATG  >  CP009273/1637849‑1638297

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.